PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.010G002900.3.p
Common NameSb10g000460, SORBIDRAFT_10g000460
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family NAC
Protein Properties Length: 340aa    MW: 39234.9 Da    PI: 6.8002
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.010G002900.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM177.92.7e-55141481129
                   NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk......kvkaeekewyfFskrdkkyatgkrknratksgyW 83 
                           +ppGfrFhPtdeelv++yL+kkv++++++l +vik+vd+yk+ePwdL++        ++e++ewyfFs++dkky+tg+r+nrat++g+W
  Sobic.010G002900.3.p  14 VPPGFRFHPTDEELVDYYLRKKVASRRIDL-NVIKDVDLYKIEPWDLQEkcrlggPGEEEQNEWYFFSHKDKKYPTGTRTNRATAAGFW 101
                           69****************************.99**************953655542233677*************************** PP

                   NAM  84 katgkdkevlsk.kgelvglkktLvfykgrapkgektdWvmheyrle 129
                           katg+dk+++++ +++lvg++ktLv+ykgrap+g+k+dW+mheyrle
  Sobic.010G002900.3.p 102 KATGRDKPIYANkQRQLVGMRKTLVYYKGRAPNGHKSDWIMHEYRLE 148
                           **********9856777****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.14E-606168IPR003441NAC domain
PROSITE profilePS5100560.32314168IPR003441NAC domain
PfamPF023651.4E-2815147IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 340 aa     Download sequence    Send to blast
MGMSSAQAQT QQLVPPGFRF HPTDEELVDY YLRKKVASRR IDLNVIKDVD LYKIEPWDLQ  60
EKCRLGGPGE EEQNEWYFFS HKDKKYPTGT RTNRATAAGF WKATGRDKPI YANKQRQLVG  120
MRKTLVYYKG RAPNGHKSDW IMHEYRLETN ENGPPQEEGW VVCRVFKKRL PTTRRESDHD  180
APCWYVDDDG TFMHDLNSPM SGLPPHHSIA QLQEQHLQML NNSYKRELKL QFQMPSHHIL  240
NAIPHELESP SFHSLLVSPD HQTKVQHAHQ HVQLMEHAVD QVTDWRVLDK FVASQLSNDA  300
AKGVDYTDEG DILQVNEKQE VATDYASTST SSSQVDPWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A5e-5211694166NO APICAL MERISTEM PROTEIN
1ut4_B5e-5211694166NO APICAL MERISTEM PROTEIN
1ut7_A5e-5211694166NO APICAL MERISTEM PROTEIN
1ut7_B5e-5211694166NO APICAL MERISTEM PROTEIN
3swm_A5e-5211697169NAC domain-containing protein 19
3swm_B5e-5211697169NAC domain-containing protein 19
3swm_C5e-5211697169NAC domain-containing protein 19
3swm_D5e-5211697169NAC domain-containing protein 19
3swp_A5e-5211697169NAC domain-containing protein 19
3swp_B5e-5211697169NAC domain-containing protein 19
3swp_C5e-5211697169NAC domain-containing protein 19
3swp_D5e-5211697169NAC domain-containing protein 19
4dul_A5e-5211694166NAC domain-containing protein 19
4dul_B5e-5211694166NAC domain-containing protein 19
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Up-regulated during xylem vessel element formation. Expressed preferentially in procambial cells adjacent to root meristem. {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}.
UniprotTISSUE SPECIFICITY: Expressed in root, shoot and hypocotyl vascular elements, columella root caps, epidermal and cortex root cells and root-hypocotyl junctions. Observed predominantly in root imature xylem vessels (PubMed:18445131). Present in root developing xylems (PubMed:16103214, PubMed:17565617). Specifically expressed in vessels in the secondary xylem of the root-hypocotyl region, and in vessels but not in interfascicular fibers in stems (PubMed:25148240). {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:17565617, ECO:0000269|PubMed:18445131, ECO:0000269|PubMed:25148240}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the secondary wall NAC binding element (SNBE), 5'-(T/A)NN(C/T)(T/C/G)TNNNNNNNA(A/C)GN(A/C/T)(A/T)-3', in the promoter of target genes (By similarity). Involved in xylem formation by promoting the expression of secondary wall-associated transcription factors and of genes involved in secondary wall biosynthesis and programmed cell death, genes driven by the secondary wall NAC binding element (SNBE). Triggers thickening of secondary walls (PubMed:16103214, PubMed:25148240). {ECO:0000250|UniProtKB:Q9LVA1, ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.010G002900.3.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKT0750910.0KT075091.1 Panicum virgatum secondary wall NAC master switch (SWN7B) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002437668.10.0NAC domain-containing protein 7
RefseqXP_021305296.10.0NAC domain-containing protein 7
RefseqXP_021305297.10.0NAC domain-containing protein 7
RefseqXP_021305298.10.0NAC domain-containing protein 7
SwissprotQ9FWX21e-110NAC7_ARATH; NAC domain-containing protein 7
TrEMBLC5Z2390.0C5Z239_SORBI; Uncharacterized protein
STRINGSb10g000460.10.0(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G12260.12e-99NAC 007
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]